import type { WellPlateFormat } from '../types'
import type { BioTemplateEnvelope } from './types'

export type QpcrChemistry = 'sybr' | 'taqman' | 'probe' | 'evagreen' | 'other'
export type QpcrControlKind = 'sample' | 'no-template' | 'no-rt' | 'positive' | 'standard' | 'calibrator'

export interface QpcrSample {
  sampleId: string
  name?: string
  group?: string
  metadata?: Record<string, unknown>
}

export interface QpcrTarget {
  id: string
  name: string
  assayId?: string
  reporter?: string
  quencher?: string
  ampliconBp?: number
  metadata?: Record<string, unknown>
}

export interface QpcrReaction {
  id: string
  wellId: string
  sampleId?: string
  targetId: string
  replicate: number
  controlKind: QpcrControlKind
  cq?: number | null
  quantity?: number | null
  flags: string[]
  metadata?: Record<string, unknown>
}

export interface QpcrPlateTemplateData {
  plateId: string
  format: WellPlateFormat
  samples: QpcrSample[]
  targets: QpcrTarget[]
  reactions: QpcrReaction[]
  instrument?: string
  chemistry: QpcrChemistry
  metadata: Record<string, unknown>
}

export type QpcrPlateTemplate = BioTemplateEnvelope<QpcrPlateTemplateData>